Files in rmflight/categoryCompare2
Meta-analysis of high-throughput experiments using feature annotations

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BUGS
DESCRIPTION
LICENSE
NAMESPACE
NEWS
R/all_classes.R R/all_generics.R R/annotations.R R/combine_enrichments.R
R/graph_table_annotation.R
R/graph_visualization.R R/hypergeometric_enrichment.R R/managing_annotations.R R/significant_results.R R/significant_results_calls.R R/utils.R
categoryCompare2.Rproj
exec/categoryCompare2.R exec/create_annotations.R exec/feature_files_2_json.R exec/filter_and_group.R exec/run_enrichment.R
executable_related/cc2_config.yml
executable_related/gene_files_2_json.R executable_related/generate_test_data.R
inst/CITATION
inst/extdata/cc2_config.yml
inst/extdata/generate_test_data.R
inst/extdata/test_data/10_entrez.txt
inst/extdata/test_data/10_symbol.txt
inst/extdata/test_data/48_entrez.txt
inst/extdata/test_data/48_symbol.txt
inst/extdata/test_data/create_annotations_example_input.json
inst/extdata/test_data/entrez.json
inst/extdata/test_data/universe_entrez.txt
inst/extdata/test_data/universe_symbol.txt
man/add_data_to_graph.Rd man/add_tooltip.Rd man/annotation.Rd man/annotation_2_json.Rd man/annotation_combinations-cc_graph-method.Rd man/annotation_combinations-significant_annotations-method.Rd man/annotation_combinations.Rd man/annotation_constructor.Rd man/annotation_gene_table.Rd man/assign_colors.Rd man/assign_communities.Rd man/cc_graph.Rd man/combine_annotation_features.Rd man/combine_annotations-list-method.Rd man/combine_enrichments-enriched_result-method.Rd man/combine_text.Rd man/combined_coefficient.Rd man/combined_enrichment-class.Rd man/combined_significant_calls.Rd man/combined_statistics.Rd man/count_go_children.Rd man/csv_annotation_table.Rd man/enriched_result.Rd man/enriched_result_constructor.Rd man/executable_path.Rd man/extract_statistics-combined_enrichment-method.Rd man/extract_statistics-statistical_results-method.Rd man/extract_statistics.Rd man/filter_annotation_graph.Rd man/generate_annotation_graph-combined_enrichment-method.Rd man/generate_annotation_graph.Rd man/generate_annotation_similarity_graph.Rd man/generate_colors.Rd man/generate_legend.Rd man/generate_link.Rd man/generate_piecharts.Rd man/generate_table-combined_enrichment-method.Rd man/generate_table.Rd man/get_db_annotation.Rd man/get_significant_annotations-combined_enrichment-method.Rd man/get_significant_annotations-statistical_results-method.Rd man/get_significant_annotations.Rd man/get_significant_annotations_calls.Rd man/graph_to_visnetwork.Rd man/have_parallel.Rd man/hypergeom_features-class.Rd man/hypergeometric_basic.Rd man/hypergeometric_feature_enrichment.Rd man/install_executables.Rd man/jaccard_coefficient.Rd man/json_2_annotation.Rd man/json_annotation_reversal.Rd man/kable_annotation_table.Rd man/label_communities.Rd man/label_go_communities.Rd man/multi_query_list.Rd man/node_assign-class.Rd man/overlap_coefficient.Rd man/remove_edges-CytoscapeWindowClass-numeric-method.Rd man/remove_edges-cc_graph-numeric-method.Rd man/show-annotation-method.Rd man/show-cc_graph-method.Rd man/show-combined_statistics-method.Rd man/show-enriched_result-method.Rd man/show-node_assign-method.Rd man/show-significant_annotations-method.Rd man/significant_annotations.Rd man/statistical_results-class.Rd man/table_from_graph.Rd man/vis_in_cytoscape.Rd man/vis_visnetwork.Rd readme.md test_data_gen.R test_data_gen2.R tests.R tests/testthat.R
tests/testthat/combined_graph.rds
tests/testthat/jaccard_graph.rds
tests/testthat/overlap_graph.rds
tests/testthat/test_combining_annotations.R tests/testthat/test_getting_statistics.R tests/testthat/test_graph_creation.R tests/testthat/test_significant_results.R
vignettes/.gitignore
vignettes/BP2.png
vignettes/BP_8.png
vignettes/KEGG.png
vignettes/allEdges.png
vignettes/categoryCompare_vignette.Rmd vignettes/categoryCompare_vignette_v2.Rmd vignettes/categoryCompare_vignette_v2_visnetwork.Rmd vignettes/executable_scripts.Rmd vignettes/executable_scripts.pdf
rmflight/categoryCompare2 documentation built on June 1, 2018, 8:05 a.m.